PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59351-59400 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.8078 | 84.4560 | 98.1928 | 91.2540 | 326 | 60 | 326 | 6 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5420 | 99.6942 | 99.3902 | 83.8741 | 326 | 1 | 326 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.5088 | 326 | 1 | 326 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.4984 | 89.8072 | 99.7067 | 47.0497 | 326 | 37 | 340 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | map_l150_m0_e0 | het | 95.7536 | 95.6012 | 95.9064 | 92.1703 | 326 | 15 | 328 | 14 | 4 | 28.5714 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 89.8651 | 88.3469 | 91.4365 | 80.2294 | 326 | 43 | 331 | 31 | 20 | 64.5161 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 66.1849 | 94.2197 | 51.0078 | 73.0013 | 326 | 20 | 329 | 316 | 307 | 97.1519 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e0 | * | 60.2392 | 62.8131 | 57.8680 | 90.6723 | 326 | 193 | 342 | 249 | 156 | 62.6506 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.0937 | 93.1429 | 97.1279 | 35.7383 | 326 | 24 | 372 | 11 | 10 | 90.9091 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.8329 | 326 | 1 | 326 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | * | map_l150_m0_e0 | het | 93.0816 | 95.6012 | 90.6915 | 92.2394 | 326 | 15 | 341 | 35 | 5 | 14.2857 | |
| ckim-dragen | INDEL | I1_5 | HG002compoundhet | homalt | 62.2015 | 99.0881 | 45.3278 | 87.8082 | 326 | 3 | 325 | 392 | 391 | 99.7449 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 69.6060 | 94.2197 | 55.1887 | 74.6108 | 326 | 20 | 351 | 285 | 24 | 8.4211 | |
| gduggal-snapvard | INDEL | D6_15 | map_siren | * | 67.5902 | 64.0472 | 71.5481 | 80.9182 | 326 | 183 | 342 | 136 | 91 | 66.9118 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m1_e0 | homalt | 95.4612 | 93.4097 | 97.6048 | 81.5368 | 326 | 23 | 326 | 8 | 1 | 12.5000 | |
| ghariani-varprowl | INDEL | D1_5 | segdup | homalt | 94.4928 | 90.8078 | 98.4894 | 93.1837 | 326 | 33 | 326 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | * | map_l150_m0_e0 | het | 78.9308 | 95.6012 | 67.2109 | 93.3460 | 326 | 15 | 494 | 241 | 48 | 19.9170 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002compoundhet | homalt | 70.9467 | 99.0881 | 55.2542 | 86.1176 | 326 | 3 | 326 | 264 | 264 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 84.2433 | 326 | 1 | 326 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | * | map_l150_m0_e0 | het | 96.0441 | 95.6012 | 96.4912 | 91.7411 | 326 | 15 | 330 | 12 | 2 | 16.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | homalt | 80.1968 | 99.0881 | 67.3554 | 78.4506 | 326 | 3 | 326 | 158 | 149 | 94.3038 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.3902 | 99.6942 | 99.0881 | 83.4507 | 326 | 1 | 326 | 3 | 1 | 33.3333 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.0318 | 94.2197 | 95.8580 | 61.6780 | 326 | 20 | 324 | 14 | 10 | 71.4286 | |
| mlin-fermikit | SNP | * | map_l250_m0_e0 | het | 35.3963 | 21.6467 | 97.0238 | 84.3210 | 326 | 1180 | 326 | 10 | 1 | 10.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l125_m1_e0 | homalt | 96.0236 | 93.4097 | 98.7879 | 81.0454 | 326 | 23 | 326 | 4 | 1 | 25.0000 | |
| jpowers-varprowl | INDEL | D1_5 | segdup | homalt | 94.4928 | 90.8078 | 98.4894 | 93.0154 | 326 | 33 | 326 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.7780 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.9819 | 99.3921 | 58.9189 | 89.0727 | 327 | 2 | 327 | 228 | 227 | 99.5614 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 49.6345 | 46.9154 | 52.6882 | 51.2725 | 327 | 370 | 343 | 308 | 167 | 54.2208 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.9231 | 51.0140 | 75.6098 | 42.2535 | 327 | 314 | 124 | 40 | 40 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 82.9104 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 83.2146 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002compoundhet | homalt | 83.8462 | 99.3921 | 72.5055 | 83.0068 | 327 | 2 | 327 | 124 | 123 | 99.1935 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.2073 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 82.1429 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.2134 | 84.7150 | 98.7915 | 90.8715 | 327 | 59 | 327 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002compoundhet | homalt | 83.5249 | 99.3921 | 72.0264 | 83.4186 | 327 | 2 | 327 | 127 | 126 | 99.2126 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 60.9506 | 99.3921 | 43.9516 | 87.9475 | 327 | 2 | 327 | 417 | 414 | 99.2806 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | homalt | 80.1471 | 99.3921 | 67.1458 | 86.0378 | 327 | 2 | 327 | 160 | 159 | 99.3750 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.8382 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e0 | het | 77.9993 | 65.7948 | 95.7627 | 93.1215 | 327 | 170 | 452 | 20 | 9 | 45.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m0_e0 | het | 97.0335 | 94.7826 | 99.3939 | 76.8908 | 327 | 18 | 328 | 2 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e1 | homalt | 97.1742 | 95.3353 | 99.0854 | 78.4211 | 327 | 16 | 325 | 3 | 1 | 33.3333 | |
| gduggal-bwavard | INDEL | D1_5 | segdup | homalt | 95.4876 | 91.3649 | 100.0000 | 92.3834 | 328 | 31 | 325 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 75.6632 | 61.3084 | 98.7952 | 82.4710 | 328 | 207 | 328 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 72.9700 | 99.6960 | 57.5439 | 88.3697 | 328 | 1 | 328 | 242 | 242 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | homalt | 66.5990 | 99.6960 | 50.0000 | 87.6390 | 328 | 1 | 328 | 328 | 328 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e0 | homalt | 97.3294 | 96.1877 | 98.4985 | 80.2725 | 328 | 13 | 328 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m0_e0 | het | 94.2433 | 95.0725 | 93.4286 | 84.6491 | 328 | 17 | 327 | 23 | 5 | 21.7391 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 54.3046 | 38.5882 | 91.6201 | 62.7471 | 328 | 522 | 328 | 30 | 21 | 70.0000 | |